PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gh_D06G1607
Organism
Gossypium hirsutum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family HD-ZIP
Protein Properties Length: 725aa    MW: 79640.4 Da    PI: 6.2804
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_D06G1607genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.42.8e-1958113156
                  TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
     Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                  +++ +++t+ q++e+e++F+++++p+ ++r+eL ++lgL+  qVk+WFqN+R+++k
  Gh_D06G1607  58 KKRYHRHTQRQIQEMEAFFKECPHPDDKQRKELGRELGLEPLQVKFWFQNKRTQMK 113
                  688999***********************************************998 PP
2START220.36.4e-692474661206
                  HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEEC CS
        START   1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevis 86 
                  ela +a++el+++a+++ep+Wv      + +n+de+l++f+++ +      ++ea+r+s+vv+m++++lve+l+d++ qW+  +     +a+tlev+s
  Gh_D06G1607 247 ELAVAAMEELIRMAQSGEPLWVPGDnstDVLNEDEYLRTFPRGIGpkplgLRSEASRESAVVIMNHVNLVEILMDVN-QWSSVFCgivsRAMTLEVLS 343
                  57899*****************87777799************999********************************.******99999********* PP

                  TT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXX CS
        START  87 sg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkgrlp 177
                  +g      galq+m+ae+q++splvp R+ +f+Ry++q+ +g+w++vdvS+d+ +++p    + +++++pSg+li++++ng+skv+wvehv++++r +
  Gh_D06G1607 344 TGvagnynGALQVMTAEFQVPSPLVPtRENYFARYCKQHIDGTWAVVDVSLDNLRPNP----MSKCRRRPSGCLIQELPNGYSKVIWVEHVEVDDRAV 437
                  *********************************************************9....688999****************************** PP

                  HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
        START 178 hwllrslvksglaegaktwvatlqrqcek 206
                  h+++r++v+sgla+gak+wvatl+rqce+
  Gh_D06G1607 438 HNIYRPVVNSGLAFGAKRWVATLDRQCER 466
                  ***************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.608.2E-2241113IPR009057Homeodomain-like
SuperFamilySSF466891.67E-1845115IPR009057Homeodomain-like
PROSITE profilePS5007116.58455115IPR001356Homeobox domain
SMARTSM003892.4E-1856119IPR001356Homeobox domain
CDDcd000865.67E-1858116No hitNo description
PfamPF000466.1E-1758113IPR001356Homeobox domain
SuperFamilySSF559611.14E-35238468No hitNo description
PROSITE profilePS5084844.157238469IPR002913START domain
CDDcd088751.02E-128242465No hitNo description
SMARTSM002341.7E-70247466IPR002913START domain
PfamPF018523.0E-58248466IPR002913START domain
Gene3DG3DSA:3.30.530.204.6E-5343466IPR023393START-like domain
SuperFamilySSF559612.32E-26486717No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009845Biological Processseed germination
GO:0009913Biological Processepidermal cell differentiation
GO:0048497Biological Processmaintenance of floral organ identity
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 725 aa     Download sequence    Send to blast
MFSPNLFESP HMFDMSHKTS ESELMGKIRD DDYEIKSVNE TMDAPSGDDQ DPDQRPKKKR  60
YHRHTQRQIQ EMEAFFKECP HPDDKQRKEL GRELGLEPLQ VKFWFQNKRT QMKAQHERHE  120
NAILKAENEK LRAENNRYKE ALSNATCPSC GGPAALGEMS FDEQHLRIEN ARLREEIDRI  180
SGIAAKYVGK PLSSLPHLSS HLHSRSADLG ASNFGNQSGF VGEMDRSGDL LRSVSGPTEA  240
DKPMIVELAV AAMEELIRMA QSGEPLWVPG DNSTDVLNED EYLRTFPRGI GPKPLGLRSE  300
ASRESAVVIM NHVNLVEILM DVNQWSSVFC GIVSRAMTLE VLSTGVAGNY NGALQVMTAE  360
FQVPSPLVPT RENYFARYCK QHIDGTWAVV DVSLDNLRPN PMSKCRRRPS GCLIQELPNG  420
YSKVIWVEHV EVDDRAVHNI YRPVVNSGLA FGAKRWVATL DRQCERLASS MASNIPAGDL  480
CVITSPEGRK SMLKLAERMV TSFCTGVGAS TAHAWTTLSA TGSDDVRVMT RKSMDDPGRP  540
PGIVLSAATS FWIQVPPKRV FDFLRDENSR SEWDILSNGG LVQEMAHIAN GRDPGNCVSL  600
LRVNSANSSQ SNMLILQESC TDAKGSYVIY APVNIVAMNI VLSGGDPDYV ALLPSGFAIL  660
PDGPGVNGGG ILEIGSGGSL LTVAFQILVD SVPTAKLSLG SVATVNSLIK CTVERIKAAV  720
KCNNA
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ghi.88520.0boll| leaf| ovule
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Specifically expressed in the layer 1 (L1) of shoot meristems. {ECO:0000269|PubMed:12505995}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269|PubMed:12505995}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN5859520.0JN585952.1 Gossypium hirsutum HD-1D gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012451363.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_012451364.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_012451365.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLI7B3V30.0I7B3V3_GOSHI; HD-1D
STRINGGorai.010G177800.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM49128149
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G04890.10.0protodermal factor 2
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Walford SA,Wu Y,Llewellyn DJ,Dennis ES
    Epidermal cell differentiation in cotton mediated by the homeodomain leucine zipper gene, GhHD-1.
    Plant J., 2012. 71(3): p. 464-78
    [PMID:22443311]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]